Title: Rosenbaum and Rubin Sensitivity
Description: Apply sensitivity analysis for offline policy evaluation, as
implemented in Jung et al. (2017) <arXiv:1702.04690> based
on Rosenbaum and Rubin (1983) <http://www.jstor.org/stable/2345524>.
Author: Jongbin Jung
Maintainer: Jongbin Jung <me@jongbin.com>
Diff between rnr versions 0.1.0 dated 2018-02-27 and 0.2.0 dated 2018-04-12
DESCRIPTION | 10 ++++---- MD5 | 11 +++++---- NAMESPACE | 1 NEWS.md | 4 +++ R/sensitize.R | 50 +++++++++++++++++++++++++++++--------------- man/sensitize.Rd | 23 ++++---------------- man/sensitize.data.frame.Rd |only 7 files changed, 54 insertions(+), 45 deletions(-)
Title: Bayesian Mixing Models in R
Description: Creates and runs Bayesian mixing models to analyze
biological tracer data (i.e. stable isotopes, fatty acids), which estimate the
proportions of source (prey) contributions to a mixture (consumer). 'MixSIAR'
is not one model, but a framework that allows a user to create a mixing model
based on their data structure and research questions, via options for fixed/
random effects, source data types, priors, and error terms. 'MixSIAR' incorporates
several years of advances since 'MixSIR' and 'SIAR', and includes both GUI
(graphical user interface) and script versions.
Author: Brian Stock [cre, aut],
Brice Semmens [aut],
Eric Ward [ctb],
Andrew Parnell [ctb],
Andrew Jackson [ctb],
Donald Phillips [ctb]
Maintainer: Brian Stock <b1stock@ucsd.edu>
Diff between MixSIAR versions 3.1.9 dated 2018-03-30 and 3.1.10 dated 2018-04-12
DESCRIPTION | 8 +++--- MD5 | 24 +++++++++--------- NEWS.md | 9 ++++++ R/compare_models.R | 8 +++--- R/run_model.R | 56 ++++++++++++++++++++++++++++++++++++++++++- README.md | 5 ++- inst/doc/cladocera_ex.html | 2 - inst/doc/geese_ex.html | 2 - inst/doc/isopod_ex.html | 2 - inst/doc/killerwhale_ex.html | 2 - inst/doc/lake_ex.html | 2 - inst/doc/wolves_ex.html | 2 - man/run_model.Rd | 10 +++++++ 13 files changed, 103 insertions(+), 29 deletions(-)
Title: Conditioned Latin Hypercube Sampling
Description: Conditioned Latin hypercube sampling, as published by Minasny and McBratney (2006) <DOI:10.1016/j.cageo.2005.12.009>. This method proposes to stratify sampling in presence of ancillary data. An extension of this method, which propose to associate a cost to each individual and take it into account during the optimisation process, is also proposed (Roudier et al., 2012, <DOI:10.1201/b12728-46>).
Author: Pierre Roudier [aut, cre],
Colby Brugnard [ctb],
Dylan Beaudette [ctb]
Maintainer: Pierre Roudier <roudierp@landcareresearch.co.nz>
Diff between clhs versions 0.5-7 dated 2017-09-11 and 0.6-0 dated 2018-04-12
clhs-0.5-7/clhs/R/AAAA.R |only clhs-0.6-0/clhs/DESCRIPTION | 23 + clhs-0.6-0/clhs/MD5 | 36 +-- clhs-0.6-0/clhs/NAMESPACE | 87 ++----- clhs-0.6-0/clhs/NEWS | 5 clhs-0.6-0/clhs/R/clhs-data.frame.R |only clhs-0.6-0/clhs/R/clhs-internal.R | 19 + clhs-0.6-0/clhs/R/clhs-package.R |only clhs-0.6-0/clhs/R/clhs-raster.R | 7 clhs-0.6-0/clhs/R/clhs-sp.R | 7 clhs-0.6-0/clhs/R/clhs.R | 363 +++++++------------------------ clhs-0.6-0/clhs/R/plot.R | 52 ++++ clhs-0.6-0/clhs/R/similarity.R |only clhs-0.6-0/clhs/build/vignette.rds |binary clhs-0.6-0/clhs/inst/doc/intro-clhs.html | 4 clhs-0.6-0/clhs/man/cLHS_result.Rd | 32 +- clhs-0.6-0/clhs/man/clhs-package.Rd | 68 +++-- clhs-0.6-0/clhs/man/clhs.Rd | 135 +++++++---- clhs-0.6-0/clhs/man/plot.cLHS_result.Rd | 48 ++-- clhs-0.6-0/clhs/man/similarity_buffer.Rd |only clhs-0.6-0/clhs/tests |only 21 files changed, 409 insertions(+), 477 deletions(-)
Title: Zig-Zag Sampler
Description: Implements the Zig-Zag algorithm with subsampling and control variates (ZZ-CV) of (Bierkens, Fearnhead, Roberts, 2016) <arXiv:1607.03188> as applied to Bayesian logistic regression, as well as basic Zig-Zag for a Gaussian target distribution.
Author: Joris Bierkens
Maintainer: Joris Bierkens <joris.bierkens@tudelft.nl>
Diff between RZigZag versions 0.1.4 dated 2017-10-28 and 0.1.5 dated 2018-04-12
DESCRIPTION | 9 +- MD5 | 21 ++--- NAMESPACE | 1 NEWS.md | 4 + R/RZigZag.R | 4 - R/RcppExports.R | 50 +++++++++++-- man/BPSGaussian.Rd |only man/RZigZag.Rd | 4 - man/ZigZagGaussian.Rd | 13 +-- src/RZigZag.cpp | 186 +++++++++++++++++++++++++++++++++++++++++--------- src/RZigZag.h | 17 ++-- src/RcppExports.cpp | 31 ++++++-- 12 files changed, 264 insertions(+), 76 deletions(-)
Title: Idealisation of Patch Clamp Recordings
Description: Allows for idealisation of patch clamp recordings by implementing the non-parametric JUmp Local dEconvolution Segmentation (JULES) filter, see F. Pein, I. Tecuapetla-Gómez, O. Schütte, C. Steinem, and A. Munk (2017) <arXiv:1706.03671>.
Author: Pein Florian [aut, cre],
Thomas Hotz [ctb],
Inder Tecuapetla-Gómez [ctb],
Timo Aspelmeier [ctb]
Maintainer: Pein Florian <fpein@uni-goettingen.de>
Diff between clampSeg versions 1.0-1 dated 2017-06-07 and 1.0-3 dated 2018-04-12
ChangeLog | 17 +++++++++++++++++ DESCRIPTION | 19 +++++++++---------- MD5 | 22 +++++++++++----------- R/RcppExports.R | 4 ++-- man/clampSeg-package.Rd | 6 +++--- man/deconvolveLocally.Rd | 2 +- man/getCritVal.Rd | 8 ++++---- man/gramA.Rd | 2 +- man/jules.Rd | 4 ++-- man/stepDetection.Rd | 2 +- src/RcppExports.cpp | 4 ++-- src/init.c | 8 ++++---- 12 files changed, 57 insertions(+), 41 deletions(-)
Title: Better ALignment CONsensus analYsis
Description: Facilitates the evolutionary analysis and structure conservation study of specified amino acids in proteins.
Author: Michal Stolarczyk & Alicja Pluciennik
Maintainer: Michal Stolarczyk <stolarczyk.michal93@gmail.com>
Diff between BALCONY versions 0.1.8 dated 2017-11-28 and 0.2.0 dated 2018-04-12
BALCONY-0.1.8/BALCONY/man/aligned_sequences_matrix2groups.Rd |only BALCONY-0.1.8/BALCONY/man/alignment_parameters.Rd |only BALCONY-0.1.8/BALCONY/man/exclude_low_probability_structures.Rd |only BALCONY-0.1.8/BALCONY/man/noteworthy_sequences.Rd |only BALCONY-0.2.0/BALCONY/DESCRIPTION | 12 BALCONY-0.2.0/BALCONY/MD5 | 57 - BALCONY-0.2.0/BALCONY/NAMESPACE | 5 BALCONY-0.2.0/BALCONY/R/BALCONYfunctions.R | 405 ++++++++-- BALCONY-0.2.0/BALCONY/data/small_alignment.RData |binary BALCONY-0.2.0/BALCONY/man/CRE_conservativity.Rd |only BALCONY-0.2.0/BALCONY/man/Escore_conservativity.Rd | 8 BALCONY-0.2.0/BALCONY/man/RealValET_conservativity.Rd |only BALCONY-0.2.0/BALCONY/man/align_params.Rd |only BALCONY-0.2.0/BALCONY/man/align_seq_mtx2grs.Rd |only BALCONY-0.2.0/BALCONY/man/alignment2matrix.Rd | 2 BALCONY-0.2.0/BALCONY/man/barplotshow.Rd | 6 BALCONY-0.2.0/BALCONY/man/calculate_AA_variation.Rd | 19 BALCONY-0.2.0/BALCONY/man/calculate_pseudo_counts.Rd |only BALCONY-0.2.0/BALCONY/man/compare_cons_metrics.Rd | 8 BALCONY-0.2.0/BALCONY/man/cons2seqs_sim.Rd | 4 BALCONY-0.2.0/BALCONY/man/consensus.Rd | 2 BALCONY-0.2.0/BALCONY/man/create_final_csv.Rd | 4 BALCONY-0.2.0/BALCONY/man/delete_isoforms.Rd | 4 BALCONY-0.2.0/BALCONY/man/excl_low_prob_strcts.Rd |only BALCONY-0.2.0/BALCONY/man/get_prot_entropy.Rd | 4 BALCONY-0.2.0/BALCONY/man/get_structures_entropy.Rd | 4 BALCONY-0.2.0/BALCONY/man/kabat_conservativity.Rd | 9 BALCONY-0.2.0/BALCONY/man/kolmogorov_smirnov_test.Rd | 4 BALCONY-0.2.0/BALCONY/man/noteworthy_seqs.Rd |only BALCONY-0.2.0/BALCONY/man/pairwise_alignment_MSA.Rd |only BALCONY-0.2.0/BALCONY/man/plot_entropy.Rd | 4 BALCONY-0.2.0/BALCONY/man/plot_structure_on_protein.Rd | 4 BALCONY-0.2.0/BALCONY/man/prepare_structure_profile.Rd | 4 BALCONY-0.2.0/BALCONY/man/preprocess_hmm_output.Rd |only BALCONY-0.2.0/BALCONY/man/schneider_conservativity.Rd | 8 BALCONY-0.2.0/BALCONY/man/shannon_conservativity.Rd | 8 36 files changed, 459 insertions(+), 126 deletions(-)
Title: Algorithms for Quantitative Pedology
Description: The Algorithms for Quantitative Pedology (AQP) project was started in 2009 to organize a loosely-related set of concepts and source code on the topic of soil profile visualization, aggregation, and classification into this package (aqp). Over the past 8 years, the project has grown into a suite of related R packages that enhance and simplify the quantitative analysis of soil profile data. Central to the AQP project is a new vocabulary of specialized functions and data structures that can accommodate the inherent complexity of soil profile information; freeing the scientist to focus on ideas rather than boilerplate data processing tasks <doi:10.1016/j.cageo.2012.10.020>. These functions and data structures have been extensively tested and documented, applied to projects involving hundreds of thousands of soil profiles, and deeply integrated into widely used tools such as SoilWeb <https://casoilresource.lawr.ucdavis.edu/soilweb-apps/>. Components of the AQP project (aqp, soilDB, sharpshootR, soilReports packages) serve an important role in routine data analysis within the USDA-NRCS Soil Science Division. The AQP suite of R packages offer a convenient platform for bridging the gap between pedometric theory and practice.
Author: Dylan Beaudette [aut, cre],
Pierre Roudier [aut, ctb]
Maintainer: Dylan Beaudette <dylan.beaudette@ca.usda.gov>
Diff between aqp versions 1.15 dated 2017-11-12 and 1.16 dated 2018-04-12
.Rinstignore | 5 DESCRIPTION | 13 - MD5 | 61 +++-- NAMESPACE | 324 ++++++++++++++--------------- NEWS | 22 +- R/SPC-find_horizons.R | 62 ++--- R/accuracy_uncertainty.R |only R/addBracket.R |only R/addVolumeFraction.R | 10 R/aggregateColor.R | 21 + R/get.ml.hz.R | 55 ++--- R/munsell2rgb.R | 6 R/plot_distance_graph.R | 100 ++++----- R/profile_plot.R | 145 +++---------- R/resample.twotheta.R | 38 +-- R/tauW.R | 392 ++++++++++++++++++------------------ R/texture-low-rv-high.R | 276 ++++++++++++------------- demo/aqp.R | 282 ++++++++++++------------- inst/CITATION | 12 - man/SPC-plotting.Rd | 306 ++++++++++++++-------------- man/SPC-utils.Rd | 196 +++++++++--------- man/addBracket.Rd | 56 ++--- man/brierScore.Rd |only man/confusionIndex.Rd |only man/f.noise.Rd | 310 ++++++++++++++-------------- man/get.ml.hz.Rd | 9 man/plot_distance_graph.Rd | 78 +++---- man/profile_compare-methods.Rd | 372 +++++++++++++++++----------------- man/resample.twotheta.Rd | 94 ++++---- man/rruff.sample.Rd | 74 +++--- man/shannonEntropy.Rd |only man/soil_minerals.Rd | 140 ++++++------ man/sp6.Rd | 114 +++++----- man/tauW.Rd | 216 +++++++++---------- man/texture.triangle.low.rv.high.Rd | 128 +++++------ 35 files changed, 1954 insertions(+), 1963 deletions(-)
Title: SPArse Matrix
Description: Set of functions for sparse matrix algebra.
Differences with other sparse matrix packages are:
(1) we only support (essentially) one sparse matrix format,
(2) based on transparent and simple structure(s),
(3) tailored for MCMC calculations within G(M)RF.
(4) and it is fast and scalable (with the extension package spam64).
Author: Reinhard Furrer [aut, cre],
Florian Gerber [ctb],
Roman Flury [ctb],
Daniel Gerber [ctb],
Kaspar Moesinger [ctb],
Youcef Saad [ctb] (SPARSEKIT
http://www-users.cs.umn.edu/~saad/software/SPARSKIT/),
Esmond G. Ng [ctb] (Fortran Cholesky routines),
Barry W. Peyton [ctb] (Fortran Cholesky routines),
Joseph W.H. Liu [ctb] (Fortran Cholesky routines),
Alan D. George [ctb] (Fortran Cholesky routines)
Maintainer: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Diff between spam versions 2.1-3 dated 2018-03-28 and 2.1-4 dated 2018-04-12
DESCRIPTION | 15 +++-- MD5 | 56 +++++++++++++------ R/definitions.R | 86 +++++++++++++++--------------- R/dim.R | 6 +- R/dist.R | 16 ++++- R/spamlist.R | 13 ++-- R/toepliz.R | 26 +++++---- build/vignette.rds |binary man/import.Rd | 2 tests/demo_article-jss-example1.Rout.save | 6 +- tests/demo_article-jss-example2.Rout.save | 6 +- tests/demo_article-jss.Rout.save | 6 +- tests/demo_cholesky.Rout.save | 6 +- tests/demo_jss15-BYM.Rout.save | 6 +- tests/demo_jss15-Leroux.Rout.save | 6 +- tests/demo_spam.Rout.save | 6 +- tests/demo_timing.Rout.save | 6 +- tests/jss_areal_counts.Rout.save | 6 +- tests/testthat |only tests/testthat.R |only 20 files changed, 161 insertions(+), 113 deletions(-)
Title: Power and Sample Size Based on Two One-Sided t-Tests (TOST) for
(Bio)Equivalence Studies
Description: Contains functions to calculate power and sample size for
various study designs used for bioequivalence studies.
See function known.designs() for study designs covered.
Moreover the package contains functions for power and sample size
based on 'expected' power in case of uncertain (estimated) variability
and/or uncertain theta0.
-----
Added are functions for the power and sample size for the ratio of
two means with normally distributed data on the original scale
(based on Fieller's confidence ('fiducial') interval).
-----
Contains further functions for power and sample size calculations based on
non-inferiority t-test. This is not a TOST procedure but eventually useful
if the question of 'non-superiority' must be evaluated.
The power and sample size calculations based on non-inferiority test may
also performed via 'expected' power in case of uncertain (estimated)
variability and/or uncertain theta0.
-----
Contains functions power.scABEL() and sampleN.scABEL() to calculate power
and sample size for the BE decision via scaled (widened) BE acceptance
limits (EMA recommended) based on simulations.
Contains also functions scABEL.ad() and sampleN.scABEL.ad() to iteratively
adjust alpha in order to maintain the overall consumer risk in ABEL studies
and adapt the sample size for the loss in power.
Contains further functions power.RSABE() and sampleN.RSABE() to calculate
power and sample size for the BE decision via reference scaled ABE criterion
according to the FDA procedure based on simulations.
Contains further functions power.NTIDFDA() and sampleN.NTIDFDA() to calculate
power and sample size for the BE decision via the FDA procedure for NTID's
based on simulations.
Contains further functions power.HVNTID() and sampleN.HVNTID() to calculate
power and sample size for the BE decision via the FDA procedure for
highly variable NTID's (see FDA Dabigatran / rivaroxaban guidances)
-----
Contains functions for power analysis of a sample size plan for ABE
(pa.ABE()), scaled ABE (pa.scABE()) and scaled ABE for NTID's (pa.NTIDFDA())
analysing power if deviating from assumptions of the plan.
-----
Contains further functions for power calculations / sample size estimation
for dose proportionality studies using the Power model.
Author: Detlew Labes [aut, cre],
Helmut Schuetz [aut],
Benjamin Lang [aut]
Maintainer: Detlew Labes <DetlewLabes@gmx.de>
Diff between PowerTOST versions 1.4-6 dated 2017-08-17 and 1.4-7 dated 2018-04-12
PowerTOST-1.4-6/PowerTOST/R/power_scABEL_0.R |only PowerTOST-1.4-6/PowerTOST/R/power_scABEL_lo.R |only PowerTOST-1.4-6/PowerTOST/R/pvalue.TOST_Benjamin.R |only PowerTOST-1.4-6/PowerTOST/R/sampleN_2TOST.R |only PowerTOST-1.4-7/PowerTOST/DESCRIPTION | 8 PowerTOST-1.4-7/PowerTOST/MD5 | 81 - PowerTOST-1.4-7/PowerTOST/NAMESPACE | 7 PowerTOST-1.4-7/PowerTOST/NEWS | 21 PowerTOST-1.4-7/PowerTOST/R/SampleSize_HVNTID.R | 2 PowerTOST-1.4-7/PowerTOST/R/expSampleSize.R | 27 PowerTOST-1.4-7/PowerTOST/R/expSampleSize_noninf.R | 27 PowerTOST-1.4-7/PowerTOST/R/exppower.R | 23 PowerTOST-1.4-7/PowerTOST/R/exppower_noninf.R | 23 PowerTOST-1.4-7/PowerTOST/R/power.R | 12 PowerTOST-1.4-7/PowerTOST/R/power_RSABE2L_isc.R |only PowerTOST-1.4-7/PowerTOST/R/power_RSABE2L_sdsims.R |only PowerTOST-1.4-7/PowerTOST/R/power_type1_2TOST.R | 429 ++++++---- PowerTOST-1.4-7/PowerTOST/R/pvalue.TOST.R |only PowerTOST-1.4-7/PowerTOST/R/sampleN_2TOST_sim.R |only PowerTOST-1.4-7/PowerTOST/R/samplesize_RSABE_NTID.R | 2 PowerTOST-1.4-7/PowerTOST/R/samplesize_scABEL.R | 8 PowerTOST-1.4-7/PowerTOST/R/samplesize_scABEL2.R | 4 PowerTOST-1.4-7/PowerTOST/R/scABEL.ad.R | 249 ++--- PowerTOST-1.4-7/PowerTOST/build/partial.rdb |binary PowerTOST-1.4-7/PowerTOST/inst/doc/Expected_Power_for_TOST.pdf |binary PowerTOST-1.4-7/PowerTOST/man/CI.BE.Rd | 84 + PowerTOST-1.4-7/PowerTOST/man/CI.RatioF.Rd | 116 +- PowerTOST-1.4-7/PowerTOST/man/CV2se.Rd | 20 PowerTOST-1.4-7/PowerTOST/man/CVfromCI.Rd | 25 PowerTOST-1.4-7/PowerTOST/man/CVpooled.Rd | 72 + PowerTOST-1.4-7/PowerTOST/man/CVwRfromU.Rd | 38 PowerTOST-1.4-7/PowerTOST/man/bib.CL.Rd | 44 - PowerTOST-1.4-7/PowerTOST/man/exppower.TOST.Rd | 17 PowerTOST-1.4-7/PowerTOST/man/exppower.noninf.Rd | 19 PowerTOST-1.4-7/PowerTOST/man/expsampleN.TOST.Rd | 12 PowerTOST-1.4-7/PowerTOST/man/expsampleN.noninf.Rd | 273 +++--- PowerTOST-1.4-7/PowerTOST/man/power.2TOST.Rd | 78 + PowerTOST-1.4-7/PowerTOST/man/power.RSABE2L.sdsims.Rd |only PowerTOST-1.4-7/PowerTOST/man/power.RatioF.Rd | 2 PowerTOST-1.4-7/PowerTOST/man/sampleN.2TOST.Rd | 59 - PowerTOST-1.4-7/PowerTOST/man/sampleN.HVNTID.Rd | 4 PowerTOST-1.4-7/PowerTOST/man/sampleN.NTIDFDA.Rd | 6 PowerTOST-1.4-7/PowerTOST/man/sampleN.RatioF.Rd | 2 PowerTOST-1.4-7/PowerTOST/man/sampleN.TOST.Rd | 52 - PowerTOST-1.4-7/PowerTOST/man/scABEL.ad.Rd | 16 PowerTOST-1.4-7/PowerTOST/man/type1error.2TOST.Rd | 121 -- 46 files changed, 1073 insertions(+), 910 deletions(-)
Title: Accurate Floating Point Sums and Products
Description: Most of the time floating point arithmetic does
approximately the right thing. When adding sums or having products
of numbers that greatly differ in magnitude, the floating point
arithmetic may be incorrect. This package implements the Kahan
(1965) sum <doi:10.1145/363707.363723>, Neumaier (1974) sum
<doi:10.1002/zamm.19740540106>, pairwise-sum (adapted from 'NumPy',
See Castaldo (2008) <doi:10.1137/070679946> for a discussion of
accuracy), and arbitrary precision sum (adapted from the fsum in
'Python' ; Shewchuk (1997)
<http://www.cs.berkeley.edu/~jrs/papers/robustr.pdf>). In addition,
products are changed to long double precision for accuracy, or
changed into a log-sum for accuracy.
Author: Matthew Fidler [aut, cre, cph],
Raymond Hettinger [cph, aut],
Jonathan Shewchuk [cph, aut],
Julian Taylor [cph, aut],
Nathaniel Smith [cph, aut],
NumPy Team [cph],
Python Team [cph]
Maintainer: Matthew Fidler <matthew.fidler@gmail.com>
Diff between PreciseSums versions 0.1 dated 2017-11-14 and 0.3 dated 2018-04-12
DESCRIPTION | 6 +-- MD5 | 10 ++--- src/PreciseSums.h | 28 +++++++++++++--- src/init.c | 15 +++++++- src/prod.c | 40 ++++++++++++++++++++-- src/sum.c | 94 +++++++++++++++++++++++++++++++++++++++--------------- 6 files changed, 149 insertions(+), 44 deletions(-)
Title: Biological Relevance Testing
Description: Analyses of large-scale -omics datasets commonly use p-values as the indicators of statistical significance. However, considering p-value alone neglects the importance of effect size (i.e., the mean difference between groups) in determining the biological relevance of a significant difference. Here, we present a novel algorithm for computing a new statistic, the biological relevance testing (BRT) index, in the frequentist hypothesis testing framework to address this problem.
Author: Le Zheng[aut], Peng Yu[aut, cre]
Maintainer: Le Zheng <lzheng.chn@gmail.com>
Diff between brt versions 1.1.0 dated 2017-03-03 and 1.2.0 dated 2018-04-12
DESCRIPTION | 8 ++++---- MD5 | 18 ++++++++++-------- NAMESPACE | 4 +--- R/brt.test.R |only R/dtavg.R | 4 ---- R/logmeanexp.R | 4 ---- R/logsumexp.R | 4 ---- man/brt.test.Rd |only man/logmeanexp.Rd | 4 ---- man/logsumexp.Rd | 4 ---- man/tavg.Rd | 2 -- 11 files changed, 15 insertions(+), 37 deletions(-)
Title: Statistical Process Control -- Calculation of ARL and Other
Control Chart Performance Measures
Description: Evaluation of control charts by means of
the zero-state, steady-state ARL (Average Run Length) and RL quantiles.
Setting up control charts for given in-control ARL. The control charts
under consideration are one- and two-sided EWMA, CUSUM, and
Shiryaev-Roberts schemes for monitoring the mean or variance of normally
distributed independent data. ARL calculation of the same set of schemes under drift (in the mean) are added.
Eventually, all ARL measures for the multivariate EWMA (MEWMA) are provided.
Author: Sven Knoth
Maintainer: Sven Knoth <Sven.Knoth@gmx.de>
Diff between spc versions 0.5.4 dated 2017-10-05 and 0.6.0 dated 2018-04-12
DESCRIPTION | 21 MD5 | 40 - NAMESPACE | 2 R/mewma.ad.R | 4 R/mewma.arl.R | 4 R/mewma.arl.f.R | 28 R/sewma.crit.R | 78 ++ R/xcusum.arl.R | 2 R/xewma.arl.f.R |only man/mewma.arl.Rd | 125 +++- man/mewma.crit.Rd | 4 man/mewma.psi.Rd | 12 man/xcusum.arl.Rd | 6 man/xewma.arl.f.Rd |only src/Makevars |only src/allspc.c | 1563 +++++++++++++++++++++++++++++++++++++++++++++++++---- src/mewma_ad.c | 28 src/mewma_arl.c | 20 src/mewma_arl_f.c | 19 src/sewma_crit.c | 22 src/spc_init.c | 2 src/xcusum_arl.c | 23 src/xewma_arl_f.c |only 23 files changed, 1805 insertions(+), 198 deletions(-)
Title: The Phylogenetic Regression of Grafen (1989)
Description: Provides general linear model facilities (single y-variable, multiple x-variables with arbitrary mixture of continuous and categorical and arbitrary interactions) for cross-species data. The method is, however, based on the nowadays rather uncommon situation in which uncertainty about a phylogeny is well represented by adopting a single polytomous tree. The theory is in A. Grafen (1989, Proc. R. Soc. B 326, 119-157) and aims to cope with both recognised phylogeny (closely related species tend to be similar) and unrecognised phylogeny (a polytomy usually indicates ignorance about the true sequence of binary splits).
Author: Alan Grafen
Maintainer: Alan Grafen <alan.grafen@sjc.ox.ac.uk>
Diff between phyreg versions 1.0.1 dated 2018-04-08 and 1.0.2 dated 2018-04-12
DESCRIPTION | 12 ++++++------ MD5 | 17 +++++++++-------- R/accEnv.R |only R/factory_default.R | 13 +------------ R/new_default.R | 24 ++++++++++-------------- R/phyreg-internal.R | 2 +- R/phyreg.R | 34 ++++++---------------------------- man/factory_default.Rd | 4 ++-- man/phyreg-package.Rd | 10 +++++++--- man/phyreg.Rd | 20 +++++++++++--------- 10 files changed, 53 insertions(+), 83 deletions(-)
Title: JavaScript Object Signing and Encryption
Description: Read and write JSON Web Keys (JWK, rfc7517), generate and verify JSON
Web Signatures (JWS, rfc7515) and encode/decode JSON Web Tokens (JWT, rfc7519).
These standards provide modern signing and encryption formats that are the basis
for services like OAuth 2.0 or LetsEncrypt and are natively supported by browsers
via the JavaScript WebCryptoAPI.
Author: Jeroen Ooms [aut, cre] (<https://orcid.org/0000-0002-4035-0289>)
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between jose versions 0.1 dated 2016-05-27 and 0.2 dated 2018-04-12
DESCRIPTION | 37 ++-- MD5 | 32 ++- NEWS |only R/jwt.R | 32 ++- build/vignette.rds |binary inst/WORDLIST |only inst/doc/jwk.R | 4 inst/doc/jwk.Rmd | 6 inst/doc/jwk.html | 323 ++++++++++++++++++++++++-------------- inst/doc/jwt.Rmd | 6 inst/doc/jwt.html | 357 +++++++++++++++++++++++++++---------------- man/base64url_encode.Rd | 3 man/jwk.Rd | 7 man/jwt_claim.Rd | 1 man/jwt_encode.Rd | 14 - tests/spelling.R |only tests/testthat/test_header.R |only vignettes/jwk.Rmd | 6 vignettes/jwt.Rmd | 6 19 files changed, 514 insertions(+), 320 deletions(-)
Title: The YUIMA Project Package for SDEs
Description: Simulation and Inference for SDEs and Other Stochastic Processes.
Author: YUIMA Project Team
Maintainer: Stefano M. Iacus <stefano.iacus@unimi.it>
Diff between yuima versions 1.6.8 dated 2017-08-16 and 1.7.10 dated 2018-04-12
DESCRIPTION | 8 MD5 | 57 NAMESPACE | 9 NEWS | 9 R/AuxMethodforPPR.R | 57 R/CPoint.R | 4 R/DataPPR.R |only R/DiagnosticCogarch.R | 7 R/cce.R | 5449 +++++++++++++++++++++++------------------------ R/cogarchNoise.R | 2 R/lambdaPPR.R | 33 R/llag.R | 63 R/llag.test.R |only R/qgv.R | 3 R/rng.R | 18 R/simulateForPpr.R | 50 R/zzz.R | 12 inst/ybook/chapter1.R | 72 inst/ybook/chapter2.R | 86 inst/ybook/chapter3.R | 28 inst/ybook/chapter4.R | 45 man/DataPpr.Rd |only man/bns.test.Rd | 248 +- man/cce.Rd | 12 man/get.counting.data.Rd |only man/hyavar.Rd | 4 man/llag.Rd | 6 man/llag.test.Rd |only man/mllag.Rd | 4 src/cce_functions.c | 126 + src/euler.c | 10 src/yuima_init.c | 70 32 files changed, 3375 insertions(+), 3117 deletions(-)
Title: Patches to Use 'dplyr' on Remote Data Sources
Description: Patches to use 'dplyr' on remote data sources ('SQL' databases,
'Spark' 2.0.0 and above) in a reliable "generic" fashion (generic meaning
user code works similarly on all such sources, without needing per-source
adaption). Due to the fluctuating nature of 'dplyr'/'dbplyr'/'rlang' 'APIs' this package
is going into maintenance mode. Most of the 'replyr' functions are already
done better by one of the non-monolithic replacement packages: 'wrapr', 'seplyr', 'rquery',
or 'cdata'.
Author: John Mount [aut, cre],
Nina Zumel [aut],
Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>
Diff between replyr versions 0.9.3 dated 2018-04-03 and 0.9.4 dated 2018-04-12
DESCRIPTION | 12 ++-- MD5 | 82 ++++++++++++++++----------------- NAMESPACE | 3 - NEWS.md | 4 + R/addIds.R | 2 R/copyToFrom.R | 9 +-- R/joinController.R | 10 +--- R/serviceName.R | 6 -- R/underscoreReplacements.R | 2 README.md | 6 +- inst/doc/DependencySorting.R | 3 - inst/doc/DependencySorting.Rmd | 3 - inst/doc/DependencySorting.html | 22 ++++---- inst/doc/ParametricExample.Rmd | 1 inst/doc/ParametricExample.html | 5 -- inst/doc/coalesce.R | 3 - inst/doc/coalesce.Rmd | 3 - inst/doc/coalesce.html | 11 ++-- inst/doc/joinController.R | 3 - inst/doc/joinController.Rmd | 3 - inst/doc/joinController.html | 21 ++++---- inst/doc/letExample.html | 8 +-- inst/doc/replyr.R | 3 - inst/doc/replyr.Rmd | 3 - inst/doc/replyr.html | 13 ++--- inst/doc/summary.R | 3 - inst/doc/summary.Rmd | 3 - inst/doc/summary.html | 11 ++-- man/makeJoinDiagramSpec.Rd | 3 - man/replyr_copy_from.Rd | 3 - man/replyr_copy_to.Rd | 3 - man/replyr_has_table.Rd | 3 - man/replyr_list_tables.Rd | 3 - man/topoSortTables.Rd | 3 - tests/testthat/test_replyr_copy_from.R | 3 - tests/testthat/test_replyr_copy_to.R | 3 - vignettes/DependencySorting.Rmd | 3 - vignettes/ParametricExample.Rmd | 1 vignettes/coalesce.Rmd | 3 - vignettes/joinController.Rmd | 3 - vignettes/replyr.Rmd | 3 - vignettes/summary.Rmd | 3 - 42 files changed, 131 insertions(+), 167 deletions(-)
Title: Discrete Time Survival Analysis
Description: Provides data transformations, estimation utilities,
predictive evaluation measures and simulation functions for discrete time
survival analysis.
Author: Thomas Welchowski <welchow@imbie.meb.uni-bonn.de> and Matthias Schmid <matthias.schmid@imbie.uni-bonn.de>
Maintainer: Thomas Welchowski <welchow@imbie.meb.uni-bonn.de>
Diff between discSurv versions 1.1.7 dated 2017-03-13 and 1.3.1 dated 2018-04-12
DESCRIPTION | 8 MD5 | 64 ++--- R/DiscSurvDataTransform.R | 353 ++++++++++++++++++++++++------ R/DiscSurvEstimation.R | 29 ++ R/DiscSurvEvaluation.R | 218 +++++++++++++----- R/DiscSurvLifeTable.R | 10 man/adjDevResid.Rd | 2 man/adjDevResidShort.Rd | 2 man/aucUno.Rd | 11 man/brierScore.Rd | 10 man/concorIndex.Rd | 37 ++- man/contToDisc.Rd | 6 man/dataCensoring.Rd | 16 - man/dataCensoringShort.Rd |only man/dataLong.Rd | 14 + man/dataLongCompRisks.Rd | 13 - man/dataLongCompRisksTimeDep.Rd |only man/dataLongSubDist.Rd |only man/dataLongTimeDep.Rd | 2 man/devResid.Rd | 2 man/devResidShort.Rd | 2 man/discSurv-package.Rd | 56 ++-- man/estMargProb.Rd | 6 man/estSurv.Rd | 6 man/estSurvCens.Rd |only man/fprUno.Rd | 7 man/fprUnoShort.Rd | 18 - man/gumbel.Rd | 6 man/intPredErrDisc.Rd | 2 man/lifeTable.Rd | 5 man/martingaleResid.Rd | 2 man/tprUno.Rd | 10 man/tprUnoShort.Rd | 14 - tests/UnitTestsDiscSurvDataTransform.R | 153 +++++++++++++ tests/UnitTestsDiscSurvEvaluation.R | 385 ++++++++++++++++----------------- 35 files changed, 1018 insertions(+), 451 deletions(-)
Title: Coarsened Exact Matching
Description: Implementation of the Coarsened Exact Matching algorithm.
Author: Iacus, Stefano M., King, Gary, Porro, Giuseppe
Maintainer: Stefano M. Iacus <stefano.iacus@unimi.it>
Diff between cem versions 1.1.17 dated 2015-08-19 and 1.1.19 dated 2018-04-12
cem-1.1.17/cem/vignettes/upquote.sty |only cem-1.1.19/cem/DESCRIPTION | 6 +- cem-1.1.19/cem/MD5 | 21 +++---- cem-1.1.19/cem/R/spacegraph.R | 4 - cem-1.1.19/cem/build/vignette.rds |binary cem-1.1.19/cem/inst/doc/JSSstyle/jss.pdf |binary cem-1.1.19/cem/inst/doc/cem.R | 92 +++++++++++++++---------------- cem-1.1.19/cem/inst/doc/cem.Rnw | 81 ++++++++++++++------------- cem-1.1.19/cem/inst/doc/cem.pdf |binary cem-1.1.19/cem/inst/doc/coarsen1.pdf |binary cem-1.1.19/cem/inst/doc/teff.pdf |binary cem-1.1.19/cem/man/pair.Rd | 2 12 files changed, 106 insertions(+), 100 deletions(-)
Title: Libreria Del Laboratorio Di Statistica Con R
Description: Insieme di funzioni di supporto al volume "Laboratorio di
Statistica con R", Iacus-Masarotto, MacGraw-Hill Italia, 2006.
This package contains sets of functions defined in "Laboratorio
di Statistica con R", Iacus-Masarotto, MacGraw-Hill Italia,
2006. Function names and docs are in italian as well.
Author: Stefano M.Iacus <stefano.iacus@unimi.it> and Guido Masarotto
<guido@sirio.stat.unipd.it>
Maintainer: Stefano M.Iacus <stefano.iacus@unimi.it>
Diff between labstatR versions 1.0.8 dated 2015-08-19 and 1.0.9 dated 2018-04-12
DESCRIPTION | 9 ++++----- MD5 | 6 +++--- R/labstatR.R | 2 +- man/test.var.Rd | 6 +++--- 4 files changed, 11 insertions(+), 12 deletions(-)
Title: Inequality, Welfare and Poverty Indices and Curves using the
EU-SILC Data
Description: R tools to measure and compare inequality, welfare and poverty using the EU statistics on income and living conditions surveys.
Author: Angel Berihuete [aut, cre],
Carmen Dolores Ramos [aut],
Miguel Angel Sordo [aut]
Maintainer: Angel Berihuete <angel.berihuete@uca.es>
Diff between rtip versions 1.1.0 dated 2018-02-20 and 1.1.1 dated 2018-04-12
DESCRIPTION | 10 +++++----- MD5 | 44 ++++++++++++++++++++++---------------------- NAMESPACE | 1 + R/OmegaGL.R | 24 ++++++++++++------------ R/arpr.R | 8 ++++---- R/arpt.R | 10 +++++----- R/gini.R | 12 ++++++------ R/lc.R | 10 +++++----- R/mih.R | 5 ----- R/mip.R | 7 +------ R/miuc.R | 11 +++-------- R/qsr.R | 13 ++++--------- R/rmpg.R | 17 ++++++----------- R/s1.R | 11 +++-------- R/s2.R | 13 ++++--------- R/setupDataset.R | 2 -- R/testGL.R | 33 ++++++++++++++++++++------------- R/testTIP.R | 34 +++++++++++++++++++++------------- R/tip.R | 4 ++-- man/arpt.Rd | 2 +- man/setupDataset.Rd | 1 - man/testGL.Rd | 8 +++++--- man/testTIP.Rd | 10 ++++++---- 23 files changed, 136 insertions(+), 154 deletions(-)
Title: Text Mining of PubMed Abstracts
Description: Text mining of PubMed Abstracts (text and XML) from <http://www.ncbi.nlm.nih.gov/pubmed>.
Author: Jyoti Rani, S.Ramachandran, Ab Rauf Shah
Maintainer: S. Ramachandran <ramuigib@gmail.com>
Diff between pubmed.mineR versions 1.0.11 dated 2017-09-12 and 1.0.12 dated 2018-04-12
DESCRIPTION | 8 +- MD5 | 94 +++++++++++++++++----------------- man/Abstracts-class.Rd | 2 man/BWI.Rd | 18 +++--- man/Find_conclusion.Rd | 2 man/Genewise.Rd | 2 man/Give_Sentences.Rd | 2 man/Give_Sentences_PMC.Rd | 2 man/Yearwise.Rd | 6 +- man/alias_fn.Rd | 21 +++---- man/altnamesfun.Rd | 8 +- man/cleanabs-methods.Rd | 2 man/cleanabs.Rd | 2 man/cos_sim_calc.Rd | 4 - man/currentabs_fn.Rd | 2 man/find_intro_conc_html.Rd | 9 +-- man/gene_atomization.Rd | 9 ++- man/genes_BWI.Rd | 8 +- man/get_MedlinePlus.Rd | 6 +- man/get_PMCtable.Rd | 6 +- man/get_Sequences.Rd | 8 +- man/get_gene_sentences.Rd | 2 man/get_original_term.Rd | 4 - man/get_original_term2.Rd | 2 man/head_abbrev.Rd | 10 +-- man/input_for_find_intro_conc_html.Rd | 4 - man/local_uniprotfun.Rd | 2 man/names_fn.Rd | 13 ++-- man/official_fn.Rd | 12 ++-- man/pmids_to_abstracts.Rd | 2 man/previousabs_fn.Rd | 11 ++- man/prevsymbol_fn.Rd | 13 ++-- man/printabs.Rd | 4 - man/pubtator_function.Rd | 4 - man/pubtator_result_list_to_table.Rd | 4 - man/readabs.Rd | 4 - man/removeabs.Rd | 8 +- man/searchabsL.Rd | 14 ++--- man/searchabsT.Rd | 14 ++--- man/sendabs.Rd | 4 - man/subabs.Rd | 6 +- man/tdm_for_lsa.Rd | 4 - man/uniprotfun.Rd | 6 +- man/whichcluster.Rd | 2 man/word_atomizations.Rd | 4 - man/wordscluster.Rd | 2 man/wordsclusterview.Rd | 2 man/xmlreadabs.Rd | 2 48 files changed, 193 insertions(+), 187 deletions(-)
Title: Tidy, Type-Safe 'prediction()' Methods
Description: A one-function package containing 'prediction()', a type-safe alternative to 'predict()' that always returns a data frame. The package currently supports common model types (e.g., "lm", "glm") from the 'stats' package, as well as numerous other model classes from other add-on packages. See the README or main package documentation page for a complete listing.
Author: Thomas J. Leeper [aut, cre] (<https://orcid.org/0000-0003-4097-6326>),
Carl Ganz [ctb]
Maintainer: Thomas J. Leeper <thosjleeper@gmail.com>
Diff between prediction versions 0.2.0 dated 2017-04-19 and 0.3.2 dated 2018-04-12
prediction-0.2.0/prediction/R/prediction_gam.R |only prediction-0.3.2/prediction/DESCRIPTION | 26 prediction-0.3.2/prediction/LICENSE | 2 prediction-0.3.2/prediction/MD5 | 128 ++-- prediction-0.3.2/prediction/NAMESPACE | 25 prediction-0.3.2/prediction/NEWS.md | 103 ++- prediction-0.3.2/prediction/R/build_datalist.R | 39 - prediction-0.3.2/prediction/R/find_data.R | 43 + prediction-0.3.2/prediction/R/make_data_frame.R |only prediction-0.3.2/prediction/R/prediction.R | 65 +- prediction-0.3.2/prediction/R/prediction_Arima.R | 12 prediction-0.3.2/prediction/R/prediction_Gam.R |only prediction-0.3.2/prediction/R/prediction_ar.R | 29 prediction-0.3.2/prediction/R/prediction_betareg.R | 29 prediction-0.3.2/prediction/R/prediction_bigFastlm.R |only prediction-0.3.2/prediction/R/prediction_bigglm.R |only prediction-0.3.2/prediction/R/prediction_biglm.R |only prediction-0.3.2/prediction/R/prediction_bruto.R |only prediction-0.3.2/prediction/R/prediction_clm.R | 55 + prediction-0.3.2/prediction/R/prediction_coxph.R | 36 - prediction-0.3.2/prediction/R/prediction_crch.R | 25 prediction-0.3.2/prediction/R/prediction_earth.R |only prediction-0.3.2/prediction/R/prediction_fda.R |only prediction-0.3.2/prediction/R/prediction_gausspr.R |only prediction-0.3.2/prediction/R/prediction_gee.R | 4 prediction-0.3.2/prediction/R/prediction_glimML.R |only prediction-0.3.2/prediction/R/prediction_glimQL.R |only prediction-0.3.2/prediction/R/prediction_glm.R | 35 - prediction-0.3.2/prediction/R/prediction_glmx.R | 27 prediction-0.3.2/prediction/R/prediction_gls.R | 28 prediction-0.3.2/prediction/R/prediction_hetglm.R | 27 prediction-0.3.2/prediction/R/prediction_hurdle.R | 24 prediction-0.3.2/prediction/R/prediction_hxlr.R | 25 prediction-0.3.2/prediction/R/prediction_ivreg.R | 25 prediction-0.3.2/prediction/R/prediction_knnreg.R |only prediction-0.3.2/prediction/R/prediction_kqr.R |only prediction-0.3.2/prediction/R/prediction_ksvm.R |only prediction-0.3.2/prediction/R/prediction_lda.R | 30 prediction-0.3.2/prediction/R/prediction_lm.R | 41 - prediction-0.3.2/prediction/R/prediction_lme.R | 26 prediction-0.3.2/prediction/R/prediction_loess.R | 25 prediction-0.3.2/prediction/R/prediction_lqs.R | 25 prediction-0.3.2/prediction/R/prediction_mars.R |only prediction-0.3.2/prediction/R/prediction_mca.R | 20 prediction-0.3.2/prediction/R/prediction_merMod.R | 24 prediction-0.3.2/prediction/R/prediction_mlogit.R | 23 prediction-0.3.2/prediction/R/prediction_mnlogit.R | 30 prediction-0.3.2/prediction/R/prediction_mnp.R | 36 - prediction-0.3.2/prediction/R/prediction_multinom.R | 30 prediction-0.3.2/prediction/R/prediction_naiveBayes.R | 26 prediction-0.3.2/prediction/R/prediction_nls.R | 27 prediction-0.3.2/prediction/R/prediction_nnet.R | 31 - prediction-0.3.2/prediction/R/prediction_plm.R | 19 prediction-0.3.2/prediction/R/prediction_polyreg.R |only prediction-0.3.2/prediction/R/prediction_ppr.R | 29 prediction-0.3.2/prediction/R/prediction_princomp.R | 27 prediction-0.3.2/prediction/R/prediction_qda.R | 27 prediction-0.3.2/prediction/R/prediction_rpart.R |only prediction-0.3.2/prediction/R/prediction_rq.R | 22 prediction-0.3.2/prediction/R/prediction_selection.R | 29 prediction-0.3.2/prediction/R/prediction_speedglm.R |only prediction-0.3.2/prediction/R/prediction_speedlm.R |only prediction-0.3.2/prediction/R/prediction_survreg.R | 26 prediction-0.3.2/prediction/R/prediction_svm.R | 31 - prediction-0.3.2/prediction/R/prediction_svyglm.R | 21 prediction-0.3.2/prediction/R/prediction_train.R |only prediction-0.3.2/prediction/R/prediction_truncreg.R |only prediction-0.3.2/prediction/R/prediction_vgam.R | 31 - prediction-0.3.2/prediction/R/prediction_vglm.R | 42 - prediction-0.3.2/prediction/R/print.R | 53 + prediction-0.3.2/prediction/README.md | 39 - prediction-0.3.2/prediction/inst/CITATION | 18 prediction-0.3.2/prediction/man/build_datalist.Rd | 12 prediction-0.3.2/prediction/man/find_data.Rd | 28 prediction-0.3.2/prediction/man/prediction.Rd | 225 +++++-- prediction-0.3.2/prediction/tests/testthat/tests-methods.R | 402 +++++++++++-- 76 files changed, 1536 insertions(+), 751 deletions(-)
Title: Correlation Classification Method
Description: Classification method described in Dancik et al (2011) <doi:10.1158/0008-5472.CAN-11-2427> that classifies a sample according to the class with the maximum mean (or any other function of) correlation between the test and training samples with known classes.
Author: Garrett M. Dancik and Yuanbin Ru
Maintainer: Garrett M. Dancik <dancikg@easternct.edu>
Diff between CCM versions 1.1 dated 2013-12-10 and 1.2 dated 2018-04-12
CHANGES | 3 ++- DESCRIPTION | 15 ++++++--------- MD5 | 8 ++++---- NAMESPACE | 12 ++++++++---- man/CCM-package.Rd | 4 ++-- 5 files changed, 22 insertions(+), 20 deletions(-)
More information about aws.comprehend at CRAN
Permanent link
Title: An Algorithm for Morphometric Characters Selection and
Statistical Validation in Morphological Taxonomy
Description: An algorithm which identifies the morphometric features that significantly discriminate two taxa and validates the morphological distinctness between them via a Monte-Carlo test, polar coordinates and overlap of the area under the density curve.
Author: Cástor Guisande González
Maintainer: Cástor Guisande González <castor@uvigo.es>
Diff between VARSEDIG versions 1.5 dated 2017-12-05 and 1.6 dated 2018-04-12
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NAMESPACE | 2 +- R/VARSEDIG.R | 30 +++++++++++++++++++++++++----- man/VARSEDIG.Rd | 12 +++++++----- 5 files changed, 41 insertions(+), 19 deletions(-)
Title: Regularized Simultaneous Component Based Data Integration
Description: It performs regularized simultaneous component based data
integration for multiblock data.
Author: Zhengguo Gu [aut, cre],
Katrijn Van Deun [aut]
Maintainer: Zhengguo Gu <z.gu@uvt.nl>
Diff between RegularizedSCA versions 0.5.0 dated 2017-10-17 and 0.5.3 dated 2018-04-12
RegularizedSCA-0.5.0/RegularizedSCA/R/mySTD.R |only RegularizedSCA-0.5.0/RegularizedSCA/man/mySTD.Rd |only RegularizedSCA-0.5.3/RegularizedSCA/DESCRIPTION | 9 RegularizedSCA-0.5.3/RegularizedSCA/MD5 | 44 +-- RegularizedSCA-0.5.3/RegularizedSCA/NAMESPACE | 2 RegularizedSCA-0.5.3/RegularizedSCA/R/cv_sparseSCA.R | 28 - RegularizedSCA-0.5.3/RegularizedSCA/R/cv_structuredSCA.R | 8 RegularizedSCA-0.5.3/RegularizedSCA/R/pca_gca.R | 2 RegularizedSCA-0.5.3/RegularizedSCA/R/plot.CVsparseSCA.R | 146 ++-------- RegularizedSCA-0.5.3/RegularizedSCA/R/plot.CVstructuredSCA.R | 8 RegularizedSCA-0.5.3/RegularizedSCA/R/pre_process.R |only RegularizedSCA-0.5.3/RegularizedSCA/R/summary.CVsparseSCA.R | 18 - RegularizedSCA-0.5.3/RegularizedSCA/R/summary.CVstructuredSCA.R | 8 RegularizedSCA-0.5.3/RegularizedSCA/README.md | 3 RegularizedSCA-0.5.3/RegularizedSCA/inst/doc/RSCA-vignette.Rmd | 10 RegularizedSCA-0.5.3/RegularizedSCA/inst/doc/RSCA-vignette.html | 13 RegularizedSCA-0.5.3/RegularizedSCA/man/cv_sparseSCA.Rd | 18 - RegularizedSCA-0.5.3/RegularizedSCA/man/cv_structuredSCA.Rd | 4 RegularizedSCA-0.5.3/RegularizedSCA/man/pca_gca.Rd | 2 RegularizedSCA-0.5.3/RegularizedSCA/man/plot.CVsparseSCA.Rd | 26 - RegularizedSCA-0.5.3/RegularizedSCA/man/plot.CVstructuredSCA.Rd | 2 RegularizedSCA-0.5.3/RegularizedSCA/man/pre_process.Rd |only RegularizedSCA-0.5.3/RegularizedSCA/man/summary.CVsparseSCA.Rd | 8 RegularizedSCA-0.5.3/RegularizedSCA/man/summary.CVstructuredSCA.Rd | 4 RegularizedSCA-0.5.3/RegularizedSCA/vignettes/RSCA-vignette.Rmd | 10 25 files changed, 139 insertions(+), 234 deletions(-)
More information about RegularizedSCA at CRAN
Permanent link
Title: Rating Scale Reduction Procedure
Description: Describes a new procedure of reducing items in a rating scale called Rating Scale Reduction (RSR). The new stop criterion in RSR procedure is added (stop global max).
Author: Waldemar W. Koczkodaj,Feng Li ,Alicja Wolny-Dominiak
Maintainer: Alicja Wolny-Dominiak <alicja.wolny-dominiak@ue.katowice.pl>
Diff between RatingScaleReduction versions 1.2 dated 2017-10-10 and 1.2.1 dated 2018-04-12
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/rsr.R | 9 +++++++-- man/rsr.Rd | 2 +- 4 files changed, 15 insertions(+), 10 deletions(-)
More information about RatingScaleReduction at CRAN
Permanent link
Title: Import, Plot and Analyze Bathymetric and Topographic Data
Description: Import xyz data from the NOAA (National Oceanic and Atmospheric Administration, <http://www.noaa.gov>), GEBCO (General Bathymetric Chart of the Oceans, <http://www.gebco.net>) and other sources, plot xyz data to prepare publication-ready figures, analyze xyz data to extract transects, get depth / altitude based on geographical coordinates, or calculate z-constrained least-cost paths.
Author: Eric Pante, Benoit Simon-Bouhet, and Jean-Olivier Irisson
Maintainer: Benoit Simon-Bouhet <besibo@gmail.com>
Diff between marmap versions 0.9.6 dated 2017-01-10 and 1.0 dated 2018-04-12
DESCRIPTION | 10 ++++----- MD5 | 50 ++++++++++++++++++++++----------------------- R/get.area.R | 24 ++++++++++----------- R/getNOAA.bathy.R | 45 +++++++++++++++++++++++++--------------- R/lc.dist.R | 12 +++++++++- R/readGEBCO.bathy.R | 8 +++++-- R/trans.mat.R | 2 + build/vignette.rds |binary data/aleutians.rda |binary data/celt.rda |binary data/florida.rda |binary data/hawaii.rda |binary data/hawaii.sites.rda |binary data/irregular.rda |binary data/metallo.rda |binary data/nw.atlantic.coast.rda |binary data/nw.atlantic.rda |binary man/aleutians.Rd | 4 +-- man/as.xyz.Rd | 2 - man/celt.Rd | 4 +-- man/florida.Rd | 4 +-- man/hawaii.Rd | 4 +-- man/marmap.Rd | 6 ++--- man/nw.atlantic.Rd | 4 +-- man/read.bathy.Rd | 2 - man/readGEBCO.bathy.Rd | 7 ++++-- 26 files changed, 109 insertions(+), 79 deletions(-)
Title: Elicitation of Independent Conditional Means Priors for
Generalised Linear Models
Description: Functions are provided to facilitate prior elicitation for Bayesian generalised linear models using independent conditional means priors. The package supports the elicitation of multivariate normal priors for generalised linear models. The approach can be applied to indirect elicitation for a generalised linear model that is linear in the parameters. The package is designed such that the facilitator executes functions within the R console during the elicitation session to provide graphical and numerical feedback at each design point. Various methodologies for eliciting fractiles (equivalently, percentiles or quantiles) are supported, including versions of the approach of Hosack et al. (2017) <doi:10.1016/j.ress.2017.06.011>. For example, experts may be asked to provide central credible intervals that correspond to a certain probability. Or experts may be allowed to vary the probability allocated to the central credible interval for each design point. Additionally, a median may or may not be elicited.
Author: Geoffrey R. Hosack
Maintainer: Geoff Hosack <geoff.hosack@csiro.au>
Diff between indirect versions 0.1.2 dated 2018-04-06 and 0.2.0 dated 2018-04-12
DESCRIPTION | 9 ++-- MD5 | 45 ++++++++++----------- R/elicit_functions.R | 96 +++++++++++++++++++++++++-------------------- R/fitting_functions.R | 8 +-- R/indirect.R | 10 ++-- R/plotting_functions.R | 42 ++++++++++--------- inst/CITATION | 2 inst/doc/indirect.R | 4 - inst/doc/indirect.Rnw | 26 ++++++------ inst/doc/indirect.pdf |binary man/CNdiag.Rd | 3 - man/dGompertzNorm.Rd | 2 man/dLogitNorm.Rd | 2 man/designLink.Rd | 47 +++++++++++++--------- man/elicitPt.Rd | 4 - man/indirect.Rd | 10 ++-- man/mV.Rd | 2 man/makeSweave.Rd | 33 ++++++++------- man/muSigma.Rd | 2 man/pdist.Rd | 4 - man/plotDesignPoint.Rd | 24 +++++------ man/saveRecord.Rd | 8 +-- vignettes/indirect.Rnw | 26 ++++++------ vignettes/indirect.bib.sav |only 24 files changed, 222 insertions(+), 187 deletions(-)
Title: Linguistic Fuzzy Logic
Description: Various algorithms related to linguistic fuzzy logic: mining for linguistic fuzzy association
rules, composition of fuzzy relations, performing perception-based logical deduction (PbLD),
and forecasting time-series using fuzzy rule-based ensemble (FRBE).
Author: Michal Burda
Maintainer: Michal Burda <michal.burda@osu.cz>
Diff between lfl versions 1.4 dated 2017-04-25 and 1.4.1 dated 2018-04-12
DESCRIPTION | 10 +++++----- MD5 | 30 +++++++++++++++--------------- NAMESPACE | 2 +- R/fcut.default.R | 10 +++------- R/searchrules.R | 2 +- configure | 14 +++++++++++++- man/cbind.fsets.Rd | 2 +- man/evalfrbe.Rd | 3 ++- man/fcut.Rd | 2 +- man/fire.Rd | 2 +- man/frbe.Rd | 3 ++- man/lcut.Rd | 2 +- man/lfl-package.Rd | 3 ++- man/pbld.Rd | 23 +++++++++-------------- man/print.frbe.Rd | 3 ++- src/algebra.cpp | 12 ++++++------ 16 files changed, 65 insertions(+), 58 deletions(-)
Title: Inference in Randomized Controlled Trials with Death and
Missingness
Description: In randomized studies involving severely ill patients, functional
outcomes are often unobserved due to missed clinic visits, premature
withdrawal or death. It is well known that if these unobserved functional
outcomes are not handled properly, biased treatment comparisons can be
produced. In this package, we implement a procedure for comparing treatments
that is based on the composite endpoint of both the functional outcome and
survival. The procedure was proposed in Wang et al. (2016) <doi:10.1111/biom.12594>.
It considers missing data imputation with a sensitivity
analysis strategy to handle the unobserved functional outcomes not due to
death.
Author: Chenguang Wang [aut, cre],
Andrew Leroux [aut, cre],
Elizabeth Colantuoni [aut],
Daniel O Scharfstein [aut],
Trustees of Columbia University [cph] (tools/make_cpp.R, R/stanmodels.R)
Maintainer: Chenguang Wang <cwang68@jhmi.edu>
Diff between idem versions 3.0 dated 2017-09-02 and 3.5 dated 2018-04-12
idem-3.0/idem/inst/shiny/report/-0.44 |only idem-3.0/idem/inst/shiny/report/report.pdf |only idem-3.5/idem/DESCRIPTION | 8 idem-3.5/idem/MD5 | 80 idem-3.5/idem/NAMESPACE | 2 idem-3.5/idem/R/idem_analysis.R | 40 idem-3.5/idem/R/idem_data.R | 34 idem-3.5/idem/R/idem_imputation.R | 29 idem-3.5/idem/R/idem_shiny.R | 23 idem-3.5/idem/R/idem_tools.R | 61 idem-3.5/idem/build/vignette.rds |binary idem-3.5/idem/exec/idem.stan | 2 idem-3.5/idem/inst/doc/vignette.R | 3 idem-3.5/idem/inst/doc/vignette.Rmd | 3 idem-3.5/idem/inst/doc/vignette.html | 4068 ++++++++++++--------------- idem-3.5/idem/inst/shiny/composite_ui.R | 172 - idem-3.5/idem/inst/shiny/server.R | 86 idem-3.5/idem/man/abc.Rd | 1 idem-3.5/idem/man/idem-package.Rd | 4 idem-3.5/idem/man/imData.Rd | 7 idem-3.5/idem/man/imFitModel.Rd | 1 idem-3.5/idem/man/imImpAll.Rd | 6 idem-3.5/idem/man/imImpSingle.Rd | 5 idem-3.5/idem/man/imInfer.Rd | 9 idem-3.5/idem/man/imShiny.Rd | 1 idem-3.5/idem/man/plot.IDEMDATA.Rd | 1 idem-3.5/idem/man/plot.IDEMFIT.Rd | 1 idem-3.5/idem/man/plot.IDEMIMP.Rd | 1 idem-3.5/idem/man/plot.IDEMINFER.Rd | 1 idem-3.5/idem/man/plot.IDEMSINGLE.Rd | 1 idem-3.5/idem/man/plot.summary.IDEMINFER.Rd | 1 idem-3.5/idem/man/print.IDEMDATA.Rd | 1 idem-3.5/idem/man/print.IDEMERROR.Rd | 6 idem-3.5/idem/man/print.IDEMFIT.Rd | 1 idem-3.5/idem/man/print.IDEMIMP.Rd | 1 idem-3.5/idem/man/print.IDEMINFER.Rd | 1 idem-3.5/idem/man/print.IDEMSINGLE.Rd | 1 idem-3.5/idem/man/print.summary.IDEMINFER.Rd | 1 idem-3.5/idem/man/summary.IDEMDATA.Rd | 1 idem-3.5/idem/man/summary.IDEMINFER.Rd | 1 idem-3.5/idem/src/include/models.hpp | 582 ++- idem-3.5/idem/vignettes/vignette.Rmd | 3 42 files changed, 2554 insertions(+), 2696 deletions(-)
Title: Variable Selection for Model-Based Clustering of Mixed-Type Data
Set with Missing Values
Description: Full model selection (detection of the relevant features and estimation of the number of clusters) for model-based clustering (see reference here <doi:10.1007/s11222-016-9670-1>). Data to analyze can be continuous, categorical, integer or mixed. Moreover, missing values can occur and do not necessitate any pre-processing. Shiny application permits an easy interpretation of the results.
Author: Matthieu Marbac and Mohammed Sedki
Maintainer: Mohammed Sedki <mohammed.sedki@u-psud.fr>
Diff between VarSelLCM versions 2.1.0 dated 2018-03-19 and 2.1.1 dated 2018-04-12
DESCRIPTION | 12 - MD5 | 24 +- R/CheckInputs.R | 12 - R/VarSelLCM.R | 18 +- R/withoutmixture.R | 4 build/vignette.rds |binary inst/CITATION | 6 inst/NEWS | 6 inst/doc/VarSelLCM.Rmd | 3 inst/doc/VarSelLCM.html | 401 +++++++++++++---------------------------------- man/VarSelCluster.Rd | 6 man/VarSelLCM-package.Rd | 6 vignettes/VarSelLCM.Rmd | 3 13 files changed, 177 insertions(+), 324 deletions(-)
Title: 64-Bit Extension of the SPArse Matrix R Package 'spam'
Description: Provides the Fortran code of the R package 'spam'
with 64-bit integers. Loading this package together with the R package
spam enables the sparse matrix class spam to handle huge sparse matrices
with more than 2^31-1 non-zero elements.
Author: Reinhard Furrer [aut, cre],
Florian Gerber [ctb],
Roman Flury [ctb],
Daniel Gerber [ctb],
Kaspar Moesinger [ctb],
Youcef Saad [ctb] (SPARSEKIT
http://www-users.cs.umn.edu/~saad/software/SPARSKIT/),
Esmond G. Ng [ctb] (Fortran Cholesky routines),
Barry W. Peyton [ctb] (Fortran Cholesky routines),
Joseph W.H. Liu [ctb] (Fortran Cholesky routines),
Alan D. George [ctb] (Fortran Cholesky routines)
Maintainer: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Diff between spam64 versions 2.1-3 dated 2018-03-29 and 2.1-4 dated 2018-04-12
DESCRIPTION | 19 +++++++++++-------- MD5 | 2 +- 2 files changed, 12 insertions(+), 9 deletions(-)
Title: Bayesian Random-Effects Meta-Analysis
Description: A collection of functions allowing to derive the posterior distribution of the two parameters in a random-effects meta-analysis, and providing functionality to evaluate joint and marginal posterior probability distributions, predictive distributions, shrinkage effects, posterior predictive p-values, etc.
Author: Christian Roever [aut, cre],
Tim Friede [ctb]
Maintainer: Christian Roever <christian.roever@med.uni-goettingen.de>
Diff between bayesmeta versions 2.1 dated 2018-02-06 and 2.2 dated 2018-04-12
DESCRIPTION | 10 +++-- MD5 | 34 ++++++++++---------- R/bayesmeta.R | 46 ++++++++++++++++----------- build/vignette.rds |binary data/Cochran1954.rda |binary data/CrinsEtAl2014.rda |binary data/GoralczykEtAl2011.rda |binary data/HinksEtAl2010.rda |binary data/Peto1980.rda |binary data/Rubin1981.rda |binary data/SidikJonkman2007.rda |binary data/SnedecorCochran.rda |binary inst/doc/Roever2017-bayesmeta.pdf |binary inst/doc/bayesmeta.html | 64 +++++++++++++++++++------------------- man/RhodesEtAlPrior.Rd | 4 +- man/TurnerEtAlPrior.Rd | 20 +++++++++-- man/bayesmeta-package.Rd | 9 ++++- man/bayesmeta.Rd | 2 - 18 files changed, 109 insertions(+), 80 deletions(-)